CoV-GLUE Mutation

CoV-GLUE Mutation: ORF = ORF3a : CodonNum = 74

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORF	CodonNum	Mut	ORF1abMut	MutType	RefCodon	MutCodon	AACount	CodonCount	CodonProp	Genome Position
ORF3a	74	S74S		syn	tcC	tcT	72952	72710	0.996683	25612-25614
ORF3a	74	S74S		syn	tcC	tcA	72952	167	0.00228918	25612-25614
ORF3a	74	S74S		syn	tcC	tcG	72952	73	0.00100066	25612-25614
ORF3a	74	S74S		syn	TCc	AGc	72952	2	0.0000274153	25612-25614
ORF3a	74	S74F		nonsyn	tCc	tTc	12891	12737	0.988054	25612-25614
ORF3a	74	S74F		nonsyn	tCC	tTT	12891	154	0.0119463	25612-25614
ORF3a	74	S74A		nonsyn	Tcc	Gcc	285	284	0.996491	25612-25614
ORF3a	74	S74A		nonsyn	TcC	GcT	285	1	0.00350877	25612-25614
ORF3a	74	S74P		nonsyn	Tcc	Ccc	251	249	0.992032	25612-25614
ORF3a	74	S74P		nonsyn	TcC	CcA	251	1	0.00398406	25612-25614
ORF3a	74	S74P		nonsyn	TcC	CcT	251	1	0.00398406	25612-25614
ORF3a	74	S74Y		nonsyn	tCc	tAc	108	106	0.981481	25612-25614
ORF3a	74	S74Y		nonsyn	tCC	tAT	108	2	0.0185185	25612-25614
ORF3a	74	S74C		nonsyn	tCc	tGc	56	54	0.964286	25612-25614
ORF3a	74	S74C		nonsyn	tCC	tGT	56	2	0.0357143	25612-25614
ORF3a	74	S74del		del	TCC	---	45	45	1	25612-25614
ORF3a	74	S74T		nonsyn	Tcc	Acc	25	21	0.84	25612-25614
ORF3a	74	S74T		nonsyn	TcC	AcG	25	2	0.08	25612-25614
ORF3a	74	S74T		nonsyn	TcC	AcT	25	1	0.04	25612-25614
ORF3a	74	S74T		nonsyn	TcC	AcA	25	1	0.04	25612-25614
ORF3a	74	S74N		nonsyn	TCc	AAc	7	6	0.857143	25612-25614
ORF3a	74	S74N		nonsyn	TCC	AAT	7	1	0.142857	25612-25614
ORF3a	74	S74del1		del	tCc	t-c	6	4	0.666667	25612-25614
ORF3a	74	S74del1		del	Tcc	-cc	6	2	0.333333	25612-25614
ORF3a	74	S74L		nonsyn	TCc	CTc	4	4	1	25612-25614
ORF3a	74	S74H		nonsyn	TCc	CAc	3	2	0.666667	25612-25614
ORF3a	74	S74H		nonsyn	TCC	CAT	3	1	0.333333	25612-25614
ORF3a	74	S74W		nonsyn	tCC	tGG	2	2	1	25612-25614
ORF3a	74	S74R		nonsyn	TCC	AGG	2	2	1	25612-25614
ORF3a	74	S74V		nonsyn	TCC	GTT	2	1	0.5	25612-25614
ORF3a	74	S74V		nonsyn	TCc	GTc	2	1	0.5	25612-25614
ORF3a	74	S74D		nonsyn	TCC	GAT	2	1	0.5	25612-25614
ORF3a	74	S74D		nonsyn	TCc	GAc	2	1	0.5	25612-25614
ORF3a	74	S74I		nonsyn	TCc	ATc	2	1	0.5	25612-25614
ORF3a	74	S74I		nonsyn	TCC	ATT	2	1	0.5	25612-25614
ORF3a	74	S74X		nonsyn	tCC	tAA	1	1	1	25612-25614
ORF3a	74	S74K		nonsyn	TCC	AAA	1	1	1	25612-25614

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORF	CodonNum	Mut	RefCodon	MutCodon	CodonCount	AACount	Lineage	LineageCodonProp
ORF3a	74	S74S	tcC	tcT	72710	72952	All	0.013907
ORF3a	74	S74S	tcC	tcA	167	72952	All	0.000032
ORF3a	74	S74S	tcC	tcG	73	72952	All	0.000014
ORF3a	74	S74S	TCc	AGc	2	72952	All	0
ORF3a	74	S74S	tcC	tcT	45807	45807	AY.4.2	0.993493
ORF3a	74	S74F	tCc	tTc	12737	12891	All	0.002436
ORF3a	74	S74F	tCC	tTT	154	12891	All	0.000029
ORF3a	74	S74S	tcC	tcT	6270	6281	AY.4	0.009759
ORF3a	74	S74S	tcC	tcA	6	6281	AY.4	0.000009
ORF3a	74	S74S	tcC	tcG	5	6281	AY.4	0.000008
ORF3a	74	S74S	tcC	tcT	5745	5745	AY.4.2.1	0.85593
ORF3a	74	S74S	tcC	tcT	4731	4731	B.1.177.4	0.998523
ORF3a	74	S74S	tcC	tcT	2836	2861	B.1.1.7	0.002539
ORF3a	74	S74S	tcC	tcA	24	2861	B.1.1.7	0.000021
ORF3a	74	S74S	tcC	tcG	1	2861	B.1.1.7	0.000001
ORF3a	74	S74F	tCc	tTc	1965	1967	A.2.5	0.980539
ORF3a	74	S74F	tCC	tTT	2	1967	A.2.5	0.000998
ORF3a	74	S74F	tCc	tTc	1725	1733	AY.4	0.002685
ORF3a	74	S74F	tCC	tTT	8	1733	AY.4	0.000012
ORF3a	74	S74S	tcC	tcT	1372	1374	B.1.617.2	0.005166
ORF3a	74	S74S	tcC	tcG	1	1374	B.1.617.2	0.000004
ORF3a	74	S74S	tcC	tcA	1	1374	B.1.617.2	0.000004
ORF3a	74	S74F	tCc	tTc	1266	1273	B.1.1.7	0.001133
ORF3a	74	S74F	tCC	tTT	7	1273	B.1.1.7	0.000006
ORF3a	74	S74F	tCc	tTc	688	689	P.1.12	0.333011
ORF3a	74	S74F	tCC	tTT	1	689	P.1.12	0.000484
ORF3a	74	S74S	tcC	tcT	653	670	B.1.177	0.008598
ORF3a	74	S74S	tcC	tcG	14	670	B.1.177	0.000184
ORF3a	74	S74S	tcC	tcA	3	670	B.1.177	0.00004
ORF3a	74	S74F	tCc	tTc	636	651	B.1.1.432	0.805063
ORF3a	74	S74F	tCC	tTT	15	651	B.1.1.432	0.018987
ORF3a	74	S74F	tCc	tTc	625	625	A.2.5.2	0.982704
ORF3a	74	S74F	tCc	tTc	402	402	B.1.438.1	0.043119
ORF3a	74	S74S	tcC	tcT	391	400	B.1.2	0.003443
ORF3a	74	S74S	tcC	tcA	6	400	B.1.2	0.000053
ORF3a	74	S74S	tcC	tcG	3	400	B.1.2	0.000026
ORF3a	74	S74F	tCc	tTc	352	352	AY.44	0.002143
ORF3a	74	S74S	tcC	tcT	328	332	AY.103	0.002037
ORF3a	74	S74S	tcC	tcA	3	332	AY.103	0.000019
ORF3a	74	S74S	tcC	tcG	1	332	AY.103	0.000006
ORF3a	74	S74S	tcC	tcT	320	321	B.1.351	0.009512
ORF3a	74	S74S	tcC	tcG	1	321	B.1.351	0.00003
ORF3a	74	S74A	Tcc	Gcc	284	285	All	0.000054
ORF3a	74	S74A	TcC	GcT	1	285	All	0
ORF3a	74	S74F	tCc	tTc	284	285	B.1.617.2	0.001069
ORF3a	74	S74F	tCC	tTT	1	285	B.1.617.2	0.000004
ORF3a	74	S74F	tCc	tTc	269	269	B.1.2	0.002369
ORF3a	74	S74S	tcC	tcT	252	253	AY.5	0.005204
ORF3a	74	S74S	tcC	tcG	1	253	AY.5	0.000021
ORF3a	74	S74P	Tcc	Ccc	249	251	All	0.000048
ORF3a	74	S74P	TcC	CcT	1	251	All	0
ORF3a	74	S74P	TcC	CcA	1	251	All	0
ORF3a	74	S74S	tcC	tcT	232	237	AY.43	0.001028
ORF3a	74	S74S	tcC	tcA	3	237	AY.43	0.000013
ORF3a	74	S74S	tcC	tcG	2	237	AY.43	0.000009
ORF3a	74	S74F	tCc	tTc	231	231	B.1.214.2	0.138489
ORF3a	74	S74F	tCc	tTc	230	230	AY.103	0.001428
ORF3a	74	S74S	tcC	tcT	228	228	B.1.1.222	0.046512
ORF3a	74	S74F	tCc	tTc	216	216	AY.33	0.014424
ORF3a	74	S74S	tcC	tcT	213	216	AY.44	0.001296
ORF3a	74	S74S	tcC	tcA	3	216	AY.44	0.000018
ORF3a	74	S74F	tCc	tTc	210	210	AY.25	0.001263
ORF3a	74	S74F	tCc	tTc	208	208	A.2.5.1	1
ORF3a	74	S74A	Tcc	Gcc	204	204	B.1.1.7	0.000183
ORF3a	74	S74F	tCc	tTc	169	169	AY.3	0.001681
ORF3a	74	S74S	tcC	tcT	131	168	AY.25	0.000788
ORF3a	74	S74S	tcC	tcA	36	168	AY.25	0.000217
ORF3a	74	S74S	tcC	tcG	1	168	AY.25	0.000006
ORF3a	74	S74F	tCc	tTc	168	168	AY.9.2	0.006171
ORF3a	74	S74P	Tcc	Ccc	167	167	B.1.1.7	0.00015
ORF3a	74	S74F	tCc	tTc	164	164	B.1.177.21	0.012541
ORF3a	74	S74F	tCc	tTc	156	156	AY.23.1	0.065109
ORF3a	74	S74F	tCc	tTc	148	148	B.1	0.001356
ORF3a	74	S74S	tcC	tcT	147	147	P.1	0.002316
ORF3a	74	S74S	tcC	tcT	146	146	B.1.177.18	0.169374
ORF3a	74	S74F	tCc	tTc	144	144	AY.23	0.010044
ORF3a	74	S74F	tCc	tTc	138	138	AY.43	0.000611
ORF3a	74	S74F	tCc	tTc	136	136	B.1.429	0.0032
ORF3a	74	S74S	tcC	tcT	132	133	AY.39	0.003262
ORF3a	74	S74S	tcC	tcA	1	133	AY.39	0.000025
ORF3a	74	S74S	tcC	tcT	129	129	B.1.526	0.003032
ORF3a	74	S74S	tcC	tcT	123	128	B.1	0.001127
ORF3a	74	S74S	tcC	tcA	4	128	B.1	0.000037
ORF3a	74	S74S	tcC	tcG	1	128	B.1	0.000009
ORF3a	74	S74F	tCc	tTc	123	123	P.1	0.001938
ORF3a	74	S74F	tCc	tTc	118	118	AY.59	0.0625
ORF3a	74	S74F	tCC	tTT	112	114	AY.4.2	0.002429
ORF3a	74	S74F	tCc	tTc	2	114	AY.4.2	0.000043
ORF3a	74	S74S	tcC	tcT	114	114	B.1.1	0.002068
ORF3a	74	S74S	tcC	tcT	102	113	AY.3	0.001015
ORF3a	74	S74S	tcC	tcA	11	113	AY.3	0.000109
ORF3a	74	S74Y	tCc	tAc	106	108	All	0.00002
ORF3a	74	S74Y	tCC	tAT	2	108	All	0
ORF3a	74	S74S	tcC	tcT	108	108	AY.98.1	0.005231
ORF3a	74	S74F	tCc	tTc	99	99	AY.98.1	0.004795
ORF3a	74	S74F	tCc	tTc	94	94	A.2.5.3	0.969072
ORF3a	74	S74S	tcC	tcT	90	90	B.1.351.5	0.053957
ORF3a	74	S74F	tCc	tTc	83	83	AY.39	0.002051
ORF3a	74	S74F	tCc	tTc	78	80	B.1.177	0.001027
ORF3a	74	S74F	tCC	tTT	2	80	B.1.177	0.000026
ORF3a	74	S74S	tcC	tcT	76	76	B.1.177.81	0.014388
ORF3a	74	S74S	tcC	tcT	64	64	B.1.429	0.001506
ORF3a	74	S74F	tCc	tTc	61	62	B.1.1	0.001107
ORF3a	74	S74F	tCC	tTT	1	62	B.1.1	0.000018
ORF3a	74	S74C	tCc	tGc	54	56	All	0.00001
ORF3a	74	S74C	tCC	tGT	2	56	All	0
ORF3a	74	S74S	tcC	tcT	54	56	AY.23	0.003766
ORF3a	74	S74S	tcC	tcA	2	56	AY.23	0.000139
ORF3a	74	S74F	tCc	tTc	54	54	B.1.351	0.001605
ORF3a	74	S74F	tCc	tTc	47	47	AY.102	0.001246
ORF3a	74	S74S	tcC	tcT	47	47	B.1.617.1	0.006061
ORF3a	74	S74S	tcC	tcT	47	47	C.37	0.005455
ORF3a	74	S74del	TCC	---	45	45	All	0.000009
ORF3a	74	S74S	tcC	tcT	45	45	P.1.14	0.002151
ORF3a	74	S74F	tCc	tTc	44	44	AY.119	0.001554
ORF3a	74	S74S	tcC	tcT	41	43	AY.102	0.001087
ORF3a	74	S74S	tcC	tcG	2	43	AY.102	0.000053
ORF3a	74	S74F	tCc	tTc	42	42	AY.46.6	0.003033
ORF3a	74	S74S	tcC	tcT	41	41	AY.39.1	0.001624
ORF3a	74	S74S	tcC	tcT	40	41	B.1.36.8	0.04
ORF3a	74	S74S	tcC	tcA	1	41	B.1.36.8	0.001
ORF3a	74	S74F	tCc	tTc	40	40	P.1.15	0.009294
ORF3a	74	S74F	tCc	tTc	39	39	B.1.160	0.001216
ORF3a	74	S74S	tcC	tcT	38	38	AY.32	0.020234
ORF3a	74	S74F	tCc	tTc	38	38	B.1.234	0.005014
ORF3a	74	S74S	tcC	tcT	36	38	B.1.427	0.001818
ORF3a	74	S74S	tcC	tcA	2	38	B.1.427	0.000101
ORF3a	74	S74F	tCc	tTc	38	38	B.1.525	0.0043
ORF3a	74	S74F	tCc	tTc	37	37	C.19	1
ORF3a	74	S74S	tcC	tcT	35	36	AY.29	0.000552
ORF3a	74	S74S	tcC	tcA	1	36	AY.29	0.000016
ORF3a	74	S74S	tcC	tcT	35	35	B.1.258.17	0.003639
ORF3a	74	S74S	tcC	tcT	34	34	AY.6	0.001398
ORF3a	74	S74F	tCc	tTc	33	33	AY.26	0.000934
ORF3a	74	S74A	Tcc	Gcc	33	33	AY.33	0.002204
ORF3a	74	S74S	tcC	tcT	33	33	B.1.1.519	0.00131
ORF3a	74	S74Y	tCc	tAc	33	33	P.1	0.00052
ORF3a	74	S74S	tcC	tcT	32	32	B.1.221	0.002273
ORF3a	74	S74S	tcC	tcT	31	31	B.1.243	0.002157
ORF3a	74	S74S	tcC	tcA	31	31	B.1.542	0.96875
ORF3a	74	S74S	tcC	tcT	29	29	B.1.36.18	0.012185
ORF3a	74	S74S	tcC	tcT	25	28	AY.26	0.000708
ORF3a	74	S74S	tcC	tcG	3	28	AY.26	0.000085
ORF3a	74	S74S	tcC	tcT	28	28	B.1.438.1	0.003003
ORF3a	74	S74C	tCc	tGc	28	28	P.2	0.005226
ORF3a	74	S74F	tCc	tTc	27	27	AY.120	0.001004
ORF3a	74	S74S	tcC	tcT	25	26	AY.42	0.001006
ORF3a	74	S74S	tcC	tcG	1	26	AY.42	0.00004
ORF3a	74	S74S	tcC	tcT	26	26	AY.52	0.021173
ORF3a	74	S74S	tcC	tcT	26	26	B.1.1.420	0.026157
ORF3a	74	S74F	tCc	tTc	26	26	B.1.177.81	0.004922
ORF3a	74	S74F	tCc	tTc	26	26	C.37	0.003018
ORF3a	74	S74T	Tcc	Acc	21	25	All	0.000004
ORF3a	74	S74T	TcC	AcG	2	25	All	0
ORF3a	74	S74T	TcC	AcT	1	25	All	0
ORF3a	74	S74T	TcC	AcA	1	25	All	0
ORF3a	74	S74F	tCc	tTc	25	25	AY.100	0.00115
ORF3a	74	S74S	tcC	tcT	24	24	B.1.258	0.001597
ORF3a	74	S74F	tCc	tTc	23	23	AY.29	0.000363
ORF3a	74	S74S	tcC	tcT	23	23	B.1.160	0.000717
ORF3a	74	S74S	tcC	tcT	23	23	B.1.311	0.006315
ORF3a	74	S74F	tCc	tTc	23	23	B.1.596.1	0.214953
ORF3a	74	S74F	tCc	tTc	22	22	B.1.596	0.001917
ORF3a	74	S74F	tCc	tTc	22	22	B.1.621	0.001947
ORF3a	74	S74F	tCc	tTc	21	21	AY.99.2	0.001935
ORF3a	74	S74S	tcC	tcT	21	21	B.1.1.189	0.03177
ORF3a	74	S74Y	tCc	tAc	21	21	B.1.1.7	0.000019
ORF3a	74	S74S	tcC	tcG	13	20	AY.113	0.001851
ORF3a	74	S74S	tcC	tcT	7	20	AY.113	0.000997
ORF3a	74	S74S	tcC	tcT	20	20	B.1.1.157	0.018265
ORF3a	74	S74F	tCc	tTc	20	20	B.1.243	0.001392
ORF3a	74	S74F	tCc	tTc	20	20	B.1.575	0.006068
ORF3a	74	S74S	tcC	tcT	19	19	AY.100	0.000874
ORF3a	74	S74F	tCc	tTc	19	19	AY.113	0.002705
ORF3a	74	S74F	tCc	tTc	19	19	AY.14	0.001672
ORF3a	74	S74S	tcC	tcT	19	19	AY.20	0.000738
ORF3a	74	S74S	tcC	tcT	19	19	AY.46.6	0.001372
ORF3a	74	S74S	tcC	tcT	19	19	AY.71	0.009026
ORF3a	74	S74S	tcC	tcT	18	18	AY.119	0.000636
ORF3a	74	S74S	tcC	tcT	18	18	AY.120.2.1	0.008969
ORF3a	74	S74F	tCc	tTc	18	18	AY.34	0.001745
ORF3a	74	S74S	tcC	tcT	18	18	AY.4.5	0.001935
ORF3a	74	S74S	tcC	tcT	17	17	AY.116.1	0.005294
ORF3a	74	S74F	tCc	tTc	17	17	AY.75	0.000952
ORF3a	74	S74F	tCc	tTc	17	17	B.1.526	0.0004
ORF3a	74	S74S	tcC	tcT	17	17	P.2	0.003173
ORF3a	74	S74F	tCc	tTc	16	16	AY.47	0.000498
ORF3a	74	S74F	tCc	tTc	16	16	AY.95	0.012177
ORF3a	74	S74S	tcC	tcT	15	16	B.1.525	0.001697
ORF3a	74	S74S	tcC	tcG	1	16	B.1.525	0.000113
ORF3a	74	S74S	tcC	tcT	16	16	N.5	0.028269
ORF3a	74	S74S	tcC	tcT	14	15	AY.120	0.000521
ORF3a	74	S74S	tcC	tcG	1	15	AY.120	0.000037
ORF3a	74	S74S	tcC	tcT	15	15	AY.121	0.00203
ORF3a	74	S74S	tcC	tcA	13	15	AY.27	0.000841
ORF3a	74	S74S	tcC	tcT	2	15	AY.27	0.000129
ORF3a	74	S74S	tcC	tcT	15	15	AY.87	0.01249
ORF3a	74	S74S	tcC	tcT	15	15	B.1.1.434	0.005228
ORF3a	74	S74S	tcC	tcT	15	15	B.1.177.29	1
ORF3a	74	S74F	tCc	tTc	15	15	B.1.311	0.004119
ORF3a	74	S74F	tCc	tTc	15	15	B.1.427	0.000757
ORF3a	74	S74S	tcC	tcT	14	14	AY.118	0.000877
ORF3a	74	S74S	tcC	tcT	14	14	AY.46	0.001457
ORF3a	74	S74S	tcC	tcT	14	14	B.1.36	0.002043
ORF3a	74	S74Y	tCc	tAc	14	14	B.1.617.2	0.000053
ORF3a	74	S74F	tCc	tTc	13	13	AY.20	0.000505
ORF3a	74	S74F	tCc	tTc	13	13	AY.45	0.001582
ORF3a	74	S74S	tcC	tcT	13	13	AY.54	0.00124
ORF3a	74	S74P	Tcc	Ccc	12	13	B.1	0.00011
ORF3a	74	S74P	TcC	CcT	1	13	B.1	0.000009
ORF3a	74	S74S	tcC	tcT	13	13	B.1.1.317	0.005352
ORF3a	74	S74F	tCc	tTc	13	13	B.1.1.519	0.000516
ORF3a	74	S74S	tcC	tcT	12	13	B.1.177.21	0.000918
ORF3a	74	S74S	tcC	tcG	1	13	B.1.177.21	0.000076
ORF3a	74	S74S	tcC	tcT	9	13	B.1.240	0.00194
ORF3a	74	S74S	tcC	tcG	4	13	B.1.240	0.000862
ORF3a	74	S74S	tcC	tcT	13	13	B.1.396	0.009174
ORF3a	74	S74F	tCc	tTc	13	13	Q.8	0.002144
ORF3a	74	S74S	tcC	tcT	13	13	W.4	0.017568
ORF3a	74	S74F	tCc	tTc	12	12	AY.106	0.004019
ORF3a	74	S74S	tcC	tcT	12	12	AY.45	0.00146
ORF3a	74	S74S	tcC	tcT	11	12	AY.47	0.000342
ORF3a	74	S74S	tcC	tcG	1	12	AY.47	0.000031
ORF3a	74	S74F	tCc	tTc	12	12	AY.90	0.008214
ORF3a	74	S74S	tcC	tcT	12	12	AY.99.2	0.001106
ORF3a	74	S74del	TCC	---	12	12	B.1.1.7	0.000011
ORF3a	74	S74F	tCc	tTc	12	12	B.1.564	0.005111
ORF3a	74	S74F	tCc	tTc	11	11	A	0.004257
ORF3a	74	S74S	tcC	tcT	11	11	AY.110	0.00124
ORF3a	74	S74S	tcC	tcT	10	11	AY.117	0.000845
ORF3a	74	S74S	tcC	tcA	1	11	AY.117	0.000085
ORF3a	74	S74S	tcC	tcT	11	11	AY.16.1	0.005169
ORF3a	74	S74S	tcC	tcT	11	11	AY.29.1	0.002426
ORF3a	74	S74S	tcC	tcT	11	11	AY.38	0.005492
ORF3a	74	S74F	tCc	tTc	11	11	AY.5	0.000227
ORF3a	74	S74F	tCc	tTc	11	11	AY.61	0.001153
ORF3a	74	S74F	tCc	tTc	11	11	B.1.1.33	0.00463
ORF3a	74	S74F	tCc	tTc	11	11	B.1.1.74	0.047414
ORF3a	74	S74S	tcC	tcT	11	11	B.1.36.36	0.006623
ORF3a	74	S74S	tcC	tcT	11	11	B.1.621	0.000974
ORF3a	74	S74F	tCc	tTc	10	10	AD.2	0.00219
ORF3a	74	S74F	tCc	tTc	10	10	AY.42	0.000402
ORF3a	74	S74S	tcC	tcT	10	10	AY.75.1	0.001803
ORF3a	74	S74S	tcC	tcT	10	10	AY.98	0.00079
ORF3a	74	S74F	tCc	tTc	10	10	B.1.1.306	0.004384
ORF3a	74	S74S	tcC	tcT	10	10	B.1.139	0.007331
ORF3a	74	S74F	tCc	tTc	10	10	B.1.210	0.021322
ORF3a	74	S74S	tcC	tcT	10	10	B.1.234	0.001319
ORF3a	74	S74S	tcC	tcT	10	10	P.1.17	0.001618
ORF3a	74	S74T	Tcc	Acc	5	9		0.277778
ORF3a	74	S74S	tcC	tcA	4	9		0.222222
ORF3a	74	S74S	tcC	tcG	2	9		0.111111
ORF3a	74	S74S	TCc	AGc	2	9		0.111111
ORF3a	74	S74T	TcC	AcG	2	9		0.111111
ORF3a	74	S74T	TcC	AcT	1	9		0.055556
ORF3a	74	S74T	TcC	AcA	1	9		0.055556
ORF3a	74	S74S	tcC	tcT	1	9		0.055556
ORF3a	74	S74F	tCc	tTc	9	9	AY.120.1	0.002889
ORF3a	74	S74S	tcC	tcT	9	9	AY.9.2	0.000331
ORF3a	74	S74S	tcC	tcT	8	9	B	0.001022
ORF3a	74	S74S	tcC	tcG	1	9	B	0.000128
ORF3a	74	S74S	tcC	tcT	9	9	B.1.177.12	0.001365
ORF3a	74	S74F	tCc	tTc	8	8	AY.117	0.000676
ORF3a	74	S74S	tcC	tcA	5	8	AY.34	0.000485
ORF3a	74	S74S	tcC	tcT	3	8	AY.34	0.000291
ORF3a	74	S74S	tcC	tcT	8	8	AY.53	0.0023
ORF3a	74	S74S	tcC	tcT	8	8	AY.84	0.0035
ORF3a	74	S74F	tCc	tTc	8	8	B	0.001022
ORF3a	74	S74F	tCc	tTc	8	8	B.1.1.28	0.00249
ORF3a	74	S74F	tCc	tTc	8	8	B.1.1.50	0.005431
ORF3a	74	S74A	Tcc	Gcc	7	7	AE.8	0.003423
ORF3a	74	S74N	TCc	AAc	6	7	All	0.000001
ORF3a	74	S74N	TCC	AAT	1	7	All	0
ORF3a	74	S74A	Tcc	Gcc	7	7	AY.102	0.000186
ORF3a	74	S74S	tcC	tcT	7	7	AY.14	0.000616
ORF3a	74	S74S	tcC	tcT	7	7	AY.30	0.00277
ORF3a	74	S74A	Tcc	Gcc	7	7	AY.4	0.000011
ORF3a	74	S74F	tCc	tTc	7	7	AY.4.4	0.002864
ORF3a	74	S74F	tCc	tTc	7	7	AY.5.3	0.002362
ORF3a	74	S74S	tcC	tcT	7	7	AY.5.4	0.001937
ORF3a	74	S74F	tCc	tTc	7	7	AY.6	0.000288
ORF3a	74	S74S	tcC	tcT	7	7	AY.86	0.005809
ORF3a	74	S74F	tCc	tTc	7	7	AY.92	0.002011
ORF3a	74	S74F	tCc	tTc	7	7	AY.98	0.000553
ORF3a	74	S74F	tCc	tTc	7	7	B.1.351.3	0.006135
ORF3a	74	S74F	tCc	tTc	7	7	B.1.36.18	0.002941
ORF3a	74	S74S	tcC	tcT	7	7	B.1.404	0.009115
ORF3a	74	S74S	tcC	tcT	7	7	B.1.568	0.007778
ORF3a	74	S74C	tCc	tGc	7	7	B.1.637	0.000512
ORF3a	74	S74S	tcC	tcT	7	7	P.1.1	0.002224
ORF3a	74	S74P	Tcc	Ccc	5	6		0.277778
ORF3a	74	S74P	TcC	CcA	1	6		0.055556
ORF3a	74	S74S	tcC	tcG	6	6	A	0.002322
ORF3a	74	S74F	tCc	tTc	6	6	A.23.1	0.004225
ORF3a	74	S74del1	tCc	t-c	4	6	All	0.000001
ORF3a	74	S74del1	Tcc	-cc	2	6	All	0
ORF3a	74	S74S	tcC	tcT	6	6	AY.13	0.000966
ORF3a	74	S74Y	tCc	tAc	6	6	AY.25	0.000036
ORF3a	74	S74P	Tcc	Ccc	6	6	AY.4	0.000009
ORF3a	74	S74S	tcC	tcT	6	6	AY.41	0.001764
ORF3a	74	S74P	Tcc	Ccc	6	6	AY.43	0.000027
ORF3a	74	S74S	tcC	tcT	6	6	AY.46.2	0.003812
ORF3a	74	S74F	tCc	tTc	6	6	AY.73	0.003992
ORF3a	74	S74S	tcC	tcT	6	6	AY.74	0.000694
ORF3a	74	S74F	tCc	tTc	6	6	B.1.1.214	0.000333
ORF3a	74	S74F	tCc	tTc	6	6	B.1.1.222	0.001224
ORF3a	74	S74F	tCc	tTc	6	6	B.1.1.282	0.069767
ORF3a	74	S74S	tcC	tcT	6	6	B.1.1.290	0.109091
ORF3a	74	S74F	tCc	tTc	6	6	B.1.1.317	0.00247
ORF3a	74	S74S	tcC	tcT	6	6	B.1.1.33	0.002525
ORF3a	74	S74S	tcC	tcT	6	6	B.1.1.50	0.004073
ORF3a	74	S74S	tcC	tcT	6	6	B.1.160.15	0.029703
ORF3a	74	S74F	tCc	tTc	6	6	B.1.221	0.000426
ORF3a	74	S74F	tCc	tTc	6	6	B.1.258	0.000399
ORF3a	74	S74F	tCc	tTc	6	6	B.1.258.14	0.005882
ORF3a	74	S74F	tCc	tTc	6	6	B.1.265	0.007624
ORF3a	74	S74F	tCc	tTc	6	6	B.1.36	0.000875
ORF3a	74	S74S	tcC	tcT	6	6	B.1.36.27	0.00458
ORF3a	74	S74F	tCc	tTc	6	6	C.32	0.139535
ORF3a	74	S74S	tcC	tcT	6	6	D.2	0.00045
ORF3a	74	S74F	tCc	tTc	6	6	P.1.14	0.000287
ORF3a	74	S74S	tcC	tcT	6	6	P.1.15	0.001394
ORF3a	74	S74S	tcC	tcT	6	6	Q.8	0.000989
ORF3a	74	S74F	tCc	tTc	5	5	AY.30	0.001979
ORF3a	74	S74S	tcC	tcT	5	5	AY.33	0.000334
ORF3a	74	S74F	tCc	tTc	5	5	AY.4.3	0.004209
ORF3a	74	S74Y	tCc	tAc	5	5	AY.43	0.000022
ORF3a	74	S74S	tcC	tcT	5	5	AY.46.4	0.000823
ORF3a	74	S74S	tcC	tcT	5	5	AY.61	0.000524
ORF3a	74	S74F	tCc	tTc	5	5	AY.67	0.002321
ORF3a	74	S74F	tCc	tTc	5	5	AY.99	0.005247
ORF3a	74	S74F	tCc	tTc	5	5	B.1.1.1	0.001633
ORF3a	74	S74S	tcC	tcT	5	5	B.1.1.132	0.074627
ORF3a	74	S74S	tcC	tcT	5	5	B.1.1.214	0.000277
ORF3a	74	S74S	tcC	tcT	5	5	B.1.1.28	0.001556
ORF3a	74	S74F	tCc	tTc	5	5	B.1.1.523	0.007812
ORF3a	74	S74F	tCc	tTc	5	5	B.1.1.63	0.001929
ORF3a	74	S74del	TCC	---	5	5	B.1.177	0.000066
ORF3a	74	S74P	Tcc	Ccc	5	5	B.1.258.14	0.004902
ORF3a	74	S74F	tCc	tTc	5	5	B.1.36.1	0.005701
ORF3a	74	S74F	tCc	tTc	5	5	B.1.517	0.002135
ORF3a	74	S74S	tcC	tcT	5	5	B.1.637	0.000365
ORF3a	74	S74F	tCc	tTc	5	5	P.2	0.000933
ORF3a	74	S74N	TCc	AAc	3	4		0.166667
ORF3a	74	S74Y	tCc	tAc	3	4		0.166667
ORF3a	74	S74F	tCc	tTc	3	4		0.166667
ORF3a	74	S74Y	tCC	tAT	1	4		0.055556
ORF3a	74	S74F	tCC	tTT	1	4		0.055556
ORF3a	74	S74N	TCC	AAT	1	4		0.055556
ORF3a	74	S74L	TCc	CTc	4	4	All	0.000001
ORF3a	74	S74S	tcC	tcT	4	4	AY.120.1	0.001284
ORF3a	74	S74F	tCc	tTc	4	4	AY.121	0.000541
ORF3a	74	S74F	tCc	tTc	4	4	AY.32	0.00213
ORF3a	74	S74S	tcC	tcT	4	4	AY.36	0.000593
ORF3a	74	S74F	tCc	tTc	4	4	AY.36	0.000593
ORF3a	74	S74F	tCc	tTc	4	4	AY.39.1	0.000158
ORF3a	74	S74F	tCc	tTc	4	4	AY.4.5	0.00043
ORF3a	74	S74F	tCc	tTc	4	4	AY.54	0.000381
ORF3a	74	S74S	tcC	tcT	4	4	AY.59	0.002119
ORF3a	74	S74S	tcC	tcT	4	4	AY.63	0.001547
ORF3a	74	S74S	tcC	tcT	4	4	AY.7.1	0.000451
ORF3a	74	S74S	tcC	tcT	4	4	AY.7.2	0.002237
ORF3a	74	S74F	tCc	tTc	4	4	AY.71	0.0019
ORF3a	74	S74S	tcC	tcT	3	4	AY.75	0.000168
ORF3a	74	S74S	tcC	tcA	1	4	AY.75	0.000056
ORF3a	74	S74S	tcC	tcT	4	4	AY.85	0.001709
ORF3a	74	S74F	tCc	tTc	4	4	AY.85	0.001709
ORF3a	74	S74F	tCc	tTc	4	4	AY.9	0.00027
ORF3a	74	S74S	tcC	tcT	4	4	AY.91	0.002922
ORF3a	74	S74P	Tcc	Ccc	4	4	B.1.1	0.000073
ORF3a	74	S74S	tcC	tcT	4	4	B.1.1.216	0.003562
ORF3a	74	S74F	tCc	tTc	4	4	B.1.1.220	0.007435
ORF3a	74	S74F	tCc	tTc	4	4	B.1.1.269	0.005413
ORF3a	74	S74S	tcC	tcT	4	4	B.1.1.344	0.043011
ORF3a	74	S74S	tcC	tcT	4	4	B.1.111	0.0047
ORF3a	74	S74Y	tCc	tAc	4	4	B.1.177	0.000053
ORF3a	74	S74S	tcC	tcT	4	4	B.1.232	0.002149
ORF3a	74	S74S	tcC	tcT	4	4	B.1.459	0.016327
ORF3a	74	S74F	tCc	tTc	4	4	B.1.558	0.018265
ORF3a	74	S74S	tcC	tcT	4	4	B.1.558	0.018265
ORF3a	74	S74S	tcC	tcG	4	4	B.1.575	0.001214
ORF3a	74	S74S	tcC	tcT	4	4	B.1.588	0.00364
ORF3a	74	S74F	tCc	tTc	4	4	B.1.595	0.001044
ORF3a	74	S74S	tcC	tcT	4	4	B.1.595	0.001044
ORF3a	74	S74S	tcC	tcT	4	4	B.1.596	0.000349
ORF3a	74	S74F	tCc	tTc	4	4	B.1.602	0.026144
ORF3a	74	S74A	Tcc	Gcc	4	4	B.1.621	0.000354
ORF3a	74	S74F	tCc	tTc	4	4	B.1.625	0.009412
ORF3a	74	S74F	tCc	tTc	4	4	B.1.628	0.001409
ORF3a	74	S74F	tCc	tTc	4	4	B.6	0.00364
ORF3a	74	S74F	tCc	tTc	4	4	C.35	0.003096
ORF3a	74	S74F	tCc	tTc	4	4	D.2	0.0003
ORF3a	74	S74S	tcC	tcT	4	4	P.1.2	0.004624
ORF3a	74	S74F	tCc	tTc	4	4	P.1.6	0.007782
ORF3a	74	S74F	tCc	tTc	4	4	P.1.7	0.001277
ORF3a	74	S74S	tcC	tcT	4	4	P.3	0.00638
ORF3a	74	S74S	tcC	tcT	4	4	Q.1	0.000505
ORF3a	74	S74F	tCc	tTc	4	4	R.1	0.00036
ORF3a	74	S74S	tcC	tcT	3	3	AD.2	0.000657
ORF3a	74	S74H	TCc	CAc	2	3	All	0
ORF3a	74	S74H	TCC	CAT	1	3	All	0
ORF3a	74	S74S	tcC	tcT	3	3	AY.106	0.001005
ORF3a	74	S74S	tcC	tcT	3	3	AY.111	0.000549
ORF3a	74	S74F	tCc	tTc	3	3	AY.13	0.000483
ORF3a	74	S74F	tCc	tTc	3	3	AY.16.1	0.00141
ORF3a	74	S74P	Tcc	Ccc	3	3	AY.23	0.000209
ORF3a	74	S74P	Tcc	Ccc	3	3	AY.25	0.000018
ORF3a	74	S74F	tCc	tTc	3	3	AY.3.1	0.000256
ORF3a	74	S74F	tCc	tTc	3	3	AY.35	0.000699
ORF3a	74	S74S	tcC	tcT	3	3	AY.39.2	0.004622
ORF3a	74	S74del	TCC	---	3	3	AY.4	0.000005
ORF3a	74	S74Y	tCc	tAc	3	3	AY.4	0.000005
ORF3a	74	S74F	tCC	tTT	3	3	AY.4.2.1	0.000447
ORF3a	74	S74S	tcC	tcT	3	3	AY.40	0.002893
ORF3a	74	S74S	tcC	tcT	3	3	AY.46.1	0.00308
ORF3a	74	S74S	tcC	tcT	3	3	AY.62	0.001307
ORF3a	74	S74S	tcC	tcT	3	3	AY.66	0.003209
ORF3a	74	S74S	tcC	tcT	3	3	AY.68	0.000821
ORF3a	74	S74F	tCc	tTc	3	3	AY.75.1	0.000541
ORF3a	74	S74F	tCc	tTc	3	3	AY.87	0.002498
ORF3a	74	S74S	tcC	tcT	3	3	AY.88	0.002653
ORF3a	74	S74S	tcC	tcT	3	3	AY.9	0.000203
ORF3a	74	S74S	tcC	tcT	3	3	AY.93	0.000819
ORF3a	74	S74S	tcC	tcT	3	3	AY.95	0.002283
ORF3a	74	S74Y	tCc	tAc	2	3	B.1	0.000018
ORF3a	74	S74Y	tCC	tAT	1	3	B.1	0.000009
ORF3a	74	S74F	tCc	tTc	3	3	B.1.1.153	0.003286
ORF3a	74	S74F	tCc	tTc	3	3	B.1.1.244	0.046154
ORF3a	74	S74S	tcC	tcT	3	3	B.1.1.284	0.000322
ORF3a	74	S74F	tCc	tTc	3	3	B.1.1.39	0.001529
ORF3a	74	S74S	tcC	tcT	3	3	B.1.1.416	0.002715
ORF3a	74	S74S	tcC	tcT	3	3	B.1.1.63	0.001157
ORF3a	74	S74C	tCc	tGc	3	3	B.1.1.7	0.000003
ORF3a	74	S74F	tCc	tTc	3	3	B.1.13	0.007126
ORF3a	74	S74S	tcC	tcT	3	3	B.1.160.32	0.012876
ORF3a	74	S74S	tcC	tcT	3	3	B.1.177.7	0.000495
ORF3a	74	S74F	tCc	tTc	3	3	B.1.177.7	0.000495
ORF3a	74	S74S	tcC	tcT	3	3	B.1.177.86	0.00055
ORF3a	74	S74F	tCc	tTc	3	3	B.1.177.86	0.00055
ORF3a	74	S74T	Tcc	Acc	3	3	B.1.351	0.000089
ORF3a	74	S74S	tcC	tcT	3	3	B.1.36.22	0.003623
ORF3a	74	S74F	tCc	tTc	3	3	B.1.36.31	0.005254
ORF3a	74	S74S	tcC	tcT	3	3	B.1.398	0.008929
ORF3a	74	S74F	tCc	tTc	3	3	B.1.400	0.001287
ORF3a	74	S74S	tcC	tcT	3	3	B.1.462	0.021739
ORF3a	74	S74F	tCc	tTc	3	3	B.1.466.2	0.001174
ORF3a	74	S74S	tcC	tcT	3	3	B.1.466.2	0.001174
ORF3a	74	S74S	tcC	tcT	3	3	B.1.597	0.013889
ORF3a	74	S74F	tCc	tTc	3	3	B.1.617.1	0.000387
ORF3a	74	S74P	Tcc	Ccc	3	3	B.1.617.2	0.000011
ORF3a	74	S74F	tCc	tTc	3	3	B.1.9.4	0.018405
ORF3a	74	S74F	tCc	tTc	3	3	C.36	0.002732
ORF3a	74	S74S	tcC	tcT	3	3	C.37.1	0.007853
ORF3a	74	S74F	tCc	tTc	3	3	L.3	0.010638
ORF3a	74	S74P	Tcc	Ccc	3	3	P.1	0.000047
ORF3a	74	S74P	Tcc	Ccc	3	3	R.1	0.00027
ORF3a	74	S74del	TCC	---	3	3	U.3	0.011583
ORF3a	74	S74R	TCC	AGG	2	2		0.111111
ORF3a	74	S74W	tCC	tGG	2	2		0.111111
ORF3a	74	S74L	TCc	CTc	2	2		0.111111
ORF3a	74	S74C	tCc	tGc	2	2		0.111111
ORF3a	74	S74A	TcC	GcT	1	2		0.055556
ORF3a	74	S74I	TCC	ATT	1	2		0.055556
ORF3a	74	S74A	Tcc	Gcc	1	2		0.055556
ORF3a	74	S74D	TCc	GAc	1	2		0.055556
ORF3a	74	S74D	TCC	GAT	1	2		0.055556
ORF3a	74	S74V	TCc	GTc	1	2		0.055556
ORF3a	74	S74V	TCC	GTT	1	2		0.055556
ORF3a	74	S74I	TCc	ATc	1	2		0.055556
ORF3a	74	S74F	tCc	tTc	2	2	A.2	0.001324
ORF3a	74	S74S	tcC	tcT	2	2	A.28	0.005291
ORF3a	74	S74S	tcC	tcT	2	2	AE.8	0.000978
ORF3a	74	S74W	tCC	tGG	2	2	All	0
ORF3a	74	S74R	TCC	AGG	2	2	All	0
ORF3a	74	S74V	TCC	GTT	1	2	All	0
ORF3a	74	S74D	TCC	GAT	1	2	All	0
ORF3a	74	S74D	TCc	GAc	1	2	All	0
ORF3a	74	S74I	TCC	ATT	1	2	All	0
ORF3a	74	S74I	TCc	ATc	1	2	All	0
ORF3a	74	S74V	TCc	GTc	1	2	All	0
ORF3a	74	S74S	tcC	tcT	2	2	AU.2	0.004843
ORF3a	74	S74P	Tcc	Ccc	2	2	AY.102	0.000053
ORF3a	74	S74F	tCc	tTc	2	2	AY.104	0.003968
ORF3a	74	S74F	tCc	tTc	2	2	AY.108	0.002205
ORF3a	74	S74F	tCc	tTc	2	2	AY.116	0.000574
ORF3a	74	S74P	Tcc	Ccc	2	2	AY.118	0.000125
ORF3a	74	S74S	tcC	tcT	2	2	AY.12	0.000632
ORF3a	74	S74S	tcC	tcT	2	2	AY.19	0.002281
ORF3a	74	S74del	TCC	---	2	2	AY.23	0.000139
ORF3a	74	S74P	Tcc	Ccc	2	2	AY.3	0.00002
ORF3a	74	S74S	tcC	tcT	2	2	AY.3.1	0.000171
ORF3a	74	S74C	tCc	tGc	2	2	AY.4	0.000003
ORF3a	74	S74F	tCc	tTc	2	2	AY.4.1	0.001475
ORF3a	74	S74C	tCC	tGT	2	2	AY.4.2	0.000043
ORF3a	74	S74del	TCC	---	2	2	AY.4.5	0.000215
ORF3a	74	S74F	tCc	tTc	2	2	AY.40	0.001929
ORF3a	74	S74A	Tcc	Gcc	2	2	AY.43	0.000009
ORF3a	74	S74T	Tcc	Acc	2	2	AY.44	0.000012
ORF3a	74	S74F	tCc	tTc	2	2	AY.46	0.000208
ORF3a	74	S74F	tCc	tTc	2	2	AY.46.3	0.001867
ORF3a	74	S74T	Tcc	Acc	2	2	AY.47	0.000062
ORF3a	74	S74S	tcC	tcT	2	2	AY.5.3	0.000675
ORF3a	74	S74S	tcC	tcT	2	2	AY.51	0.001818
ORF3a	74	S74F	tCc	tTc	2	2	AY.52	0.001629
ORF3a	74	S74S	tcC	tcT	2	2	AY.55	0.001835
ORF3a	74	S74F	tCc	tTc	2	2	AY.65	0.001066
ORF3a	74	S74F	tCc	tTc	2	2	AY.69	0.000373
ORF3a	74	S74S	tcC	tcT	2	2	AY.73	0.001331
ORF3a	74	S74Y	tCc	tAc	2	2	AY.78	0.003082
ORF3a	74	S74F	tCc	tTc	2	2	AY.84	0.000875
ORF3a	74	S74P	Tcc	Ccc	2	2	AY.9	0.000135
ORF3a	74	S74S	tcC	tcT	2	2	AY.9.1	0.000167
ORF3a	74	S74S	tcC	tcT	2	2	AY.99	0.002099
ORF3a	74	S74del	TCC	---	2	2	B.1	0.000018
ORF3a	74	S74T	Tcc	Acc	2	2	B.1	0.000018
ORF3a	74	S74H	TCC	CAT	1	2	B.1	0.000009
ORF3a	74	S74H	TCc	CAc	1	2	B.1	0.000009
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.141	0.004024
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.161	0.007067
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.216	0.001781
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.25	0.001137
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.265	0.006309
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.277	0.001517
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.294	0.002532
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.305	0.007722
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.306	0.000877
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.354	0.008772
ORF3a	74	S74S	tcC	tcT	2	2	B.1.1.368	0.006173
ORF3a	74	S74P	Tcc	Ccc	2	2	B.1.1.37	0.000386
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.397	0.004505
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.418	0.045455
ORF3a	74	S74F	tCc	tTc	2	2	B.1.1.450	0.068966
ORF3a	74	S74L	TCc	CTc	2	2	B.1.1.7	0.000002
ORF3a	74	S74F	tCc	tTc	2	2	B.1.108	0.011628
ORF3a	74	S74S	tcC	tcT	2	2	B.1.146	0.008475
ORF3a	74	S74F	tCc	tTc	2	2	B.1.157	0.00597
ORF3a	74	S74P	Tcc	Ccc	2	2	B.1.177	0.000026
ORF3a	74	S74A	Tcc	Gcc	2	2	B.1.177.12	0.000303
ORF3a	74	S74S	tcC	tcT	2	2	B.1.177.57	0.000562
ORF3a	74	S74A	Tcc	Gcc	2	2	B.1.177.57	0.000562
ORF3a	74	S74Y	tCc	tAc	2	2	B.1.2	0.000018
ORF3a	74	S74F	tCc	tTc	2	2	B.1.206	0.001631
ORF3a	74	S74S	tcC	tcT	2	2	B.1.306	0.011429
ORF3a	74	S74S	tcC	tcT	2	2	B.1.349	0.00143
ORF3a	74	S74F	tCc	tTc	2	2	B.1.351.2	0.000605
ORF3a	74	S74S	tcC	tcT	2	2	B.1.351.2	0.000605
ORF3a	74	S74S	tcC	tcT	2	2	B.1.351.3	0.001753
ORF3a	74	S74F	tCc	tTc	2	2	B.1.36.19	0.018519
ORF3a	74	S74S	tcC	tcG	1	2	B.1.36.29	0.000517
ORF3a	74	S74S	tcC	tcT	1	2	B.1.36.29	0.000517
ORF3a	74	S74F	tCc	tTc	2	2	B.1.36.8	0.002
ORF3a	74	S74F	tCc	tTc	2	2	B.1.369	0.00057
ORF3a	74	S74F	tCc	tTc	2	2	B.1.396	0.001411
ORF3a	74	S74Y	tCc	tAc	2	2	B.1.427	0.000101
ORF3a	74	S74F	tCc	tTc	2	2	B.1.509	0.001732
ORF3a	74	S74S	tcC	tcT	2	2	B.1.509	0.001732
ORF3a	74	S74F	tCc	tTc	2	2	B.1.543	0.02
ORF3a	74	S74F	tCc	tTc	2	2	B.1.561	0.000794
ORF3a	74	S74F	tCC	tTT	1	2	B.1.577	0.000687
ORF3a	74	S74F	tCc	tTc	1	2	B.1.577	0.000687
ORF3a	74	S74S	tcC	tcT	2	2	B.1.582	0.000981
ORF3a	74	S74S	tcC	tcT	2	2	B.1.612	0.005305
ORF3a	74	S74A	Tcc	Gcc	2	2	B.1.617.2	0.000008
ORF3a	74	S74S	tcC	tcT	2	2	B.1.619	0.001742
ORF3a	74	S74F	tCc	tTc	2	2	B.1.619	0.001742
ORF3a	74	S74S	tcC	tcT	2	2	B.1.621.1	0.001012
ORF3a	74	S74S	tcC	tcT	2	2	B.1.623	0.001073
ORF3a	74	S74F	tCc	tTc	2	2	B.1.623	0.001073
ORF3a	74	S74F	tCc	tTc	2	2	B.1.627	0.00404
ORF3a	74	S74S	tcC	tcT	2	2	B.1.627	0.00404
ORF3a	74	S74F	tCc	tTc	2	2	B.1.637	0.000146
ORF3a	74	S74S	tcC	tcT	2	2	B.1.93	0.001867
ORF3a	74	S74S	tcC	tcT	2	2	B.3.1	0.003317
ORF3a	74	S74S	tcC	tcT	2	2	B.4	0.004415
ORF3a	74	S74F	tCc	tTc	2	2	B.40	0.000729
ORF3a	74	S74F	tCc	tTc	2	2	B.52	0.020202
ORF3a	74	S74S	tcC	tcT	2	2	C.16	0.002121
ORF3a	74	S74C	tCc	tGc	2	2	C.37	0.000232
ORF3a	74	S74F	tCc	tTc	2	2	Q.1	0.000253
ORF3a	74	S74H	TCc	CAc	1	1		0.055556
ORF3a	74	S74K	TCC	AAA	1	1		0.055556
ORF3a	74	S74X	tCC	tAA	1	1		0.055556
ORF3a	74	S74S	tcC	tcT	1	1	A.1	0.000282
ORF3a	74	S74S	tcC	tcT	1	1	A.2	0.000662
ORF3a	74	S74F	tCc	tTc	1	1	A.2.4	0.003367
ORF3a	74	S74S	tcC	tcT	1	1	A.2.5	0.000499
ORF3a	74	S74S	tcC	tcT	1	1	A.23	0.010526
ORF3a	74	S74S	tcC	tcT	1	1	A.25	0.018182
ORF3a	74	S74S	tcC	tcT	1	1	A.6	0.005128
ORF3a	74	S74P	Tcc	Ccc	1	1	AD.2	0.000219
ORF3a	74	S74del	TCC	---	1	1	AD.2	0.000219
ORF3a	74	S74F	tCc	tTc	1	1	AE.8	0.000489
ORF3a	74	S74F	tCc	tTc	1	1	AH.2	0.012048
ORF3a	74	S74del	TCC	---	1	1	AH.3	0.003802
ORF3a	74	S74K	TCC	AAA	1	1	All	0
ORF3a	74	S74X	tCC	tAA	1	1	All	0
ORF3a	74	S74S	tcC	tcT	1	1	AU.3	0.00211
ORF3a	74	S74S	tcC	tcA	1	1	AY.1	0.000396
ORF3a	74	S74S	tcC	tcT	1	1	AY.10	0.00053
ORF3a	74	S74F	tCc	tTc	1	1	AY.10	0.00053
ORF3a	74	S74S	tcC	tcT	1	1	AY.101	0.00049
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.103	0.000006
ORF3a	74	S74del1	tCc	t-c	1	1	AY.103	0.000006
ORF3a	74	S74S	tcC	tcT	1	1	AY.107	0.000466
ORF3a	74	S74S	tcC	tcT	1	1	AY.108	0.001103
ORF3a	74	S74F	tCc	tTc	1	1	AY.109	0.00074
ORF3a	74	S74S	tcC	tcT	1	1	AY.109	0.00074
ORF3a	74	S74S	tcC	tcT	1	1	AY.11	0.001339
ORF3a	74	S74F	tCc	tTc	1	1	AY.110	0.000113
ORF3a	74	S74del	TCC	---	1	1	AY.111	0.000183
ORF3a	74	S74F	tCc	tTc	1	1	AY.111	0.000183
ORF3a	74	S74S	tcC	tcT	1	1	AY.114	0.000231
ORF3a	74	S74S	tcC	tcT	1	1	AY.116	0.000287
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.116	0.000287
ORF3a	74	S74F	tCc	tTc	1	1	AY.118	0.000063
ORF3a	74	S74F	tCc	tTc	1	1	AY.120.2	0.001285
ORF3a	74	S74S	tcC	tcT	1	1	AY.16	0.00038
ORF3a	74	S74F	tCc	tTc	1	1	AY.16	0.00038
ORF3a	74	S74P	Tcc	Ccc	1	1	AY.20	0.000039
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.20	0.000039
ORF3a	74	S74C	tCc	tGc	1	1	AY.23	0.00007
ORF3a	74	S74F	tCc	tTc	1	1	AY.24	0.000431
ORF3a	74	S74C	tCc	tGc	1	1	AY.25	0.000006
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.25	0.000006
ORF3a	74	S74del	TCC	---	1	1	AY.25	0.000006
ORF3a	74	S74F	tCc	tTc	1	1	AY.27	0.000065
ORF3a	74	S74Y	tCc	tAc	1	1	AY.29	0.000016
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.29	0.000016
ORF3a	74	S74A	Tcc	Gcc	1	1	AY.29.1	0.000221
ORF3a	74	S74del1	tCc	t-c	1	1	AY.3	0.00001
ORF3a	74	S74del	TCC	---	1	1	AY.33	0.000067
ORF3a	74	S74F	tCc	tTc	1	1	AY.34.1	0.00051
ORF3a	74	S74S	tcC	tcT	1	1	AY.35	0.000233
ORF3a	74	S74F	tCc	tTc	1	1	AY.38	0.000499
ORF3a	74	S74del	TCC	---	1	1	AY.39	0.000025
ORF3a	74	S74Y	tCc	tAc	1	1	AY.39.1	0.00004
ORF3a	74	S74del1	Tcc	-cc	1	1	AY.4	0.000002
ORF3a	74	S74T	Tcc	Acc	1	1	AY.4	0.000002
ORF3a	74	S74del	TCC	---	1	1	AY.4.2	0.000022
ORF3a	74	S74F	tCc	tTc	1	1	AY.41	0.000294
ORF3a	74	S74del1	Tcc	-cc	1	1	AY.43	0.000004
ORF3a	74	S74del	TCC	---	1	1	AY.43	0.000004
ORF3a	74	S74C	tCc	tGc	1	1	AY.43	0.000004
ORF3a	74	S74T	Tcc	Acc	1	1	AY.43	0.000004
ORF3a	74	S74del1	tCc	t-c	1	1	AY.44	0.000006
ORF3a	74	S74P	Tcc	Ccc	1	1	AY.44	0.000006
ORF3a	74	S74Y	tCc	tAc	1	1	AY.44	0.000006
ORF3a	74	S74F	tCc	tTc	1	1	AY.46.2	0.000635
ORF3a	74	S74F	tCc	tTc	1	1	AY.46.4	0.000165
ORF3a	74	S74F	tCc	tTc	1	1	AY.46.5	0.000198
ORF3a	74	S74S	tcC	tcT	1	1	AY.48	0.000465
ORF3a	74	S74P	Tcc	Ccc	1	1	AY.5	0.000021
ORF3a	74	S74S	tcC	tcT	1	1	AY.50	0.000799
ORF3a	74	S74F	tCc	tTc	1	1	AY.53	0.000288
ORF3a	74	S74F	tCc	tTc	1	1	AY.55	0.000917
ORF3a	74	S74S	tcC	tcT	1	1	AY.57	0.000656
ORF3a	74	S74S	tcC	tcT	1	1	AY.58	0.000907
ORF3a	74	S74S	tcC	tcT	1	1	AY.60	0.000938
ORF3a	74	S74F	tCc	tTc	1	1	AY.62	0.000436
ORF3a	74	S74S	tcC	tcT	1	1	AY.64	0.000595
ORF3a	74	S74S	tcC	tcT	1	1	AY.65	0.000533
ORF3a	74	S74S	tcC	tcT	1	1	AY.67	0.000464
ORF3a	74	S74S	tcC	tcT	1	1	AY.69	0.000187
ORF3a	74	S74S	tcC	tcA	1	1	AY.7	0.000196
ORF3a	74	S74F	tCc	tTc	1	1	AY.70	0.000209
ORF3a	74	S74F	tCc	tTc	1	1	AY.72	0.001361
ORF3a	74	S74F	tCc	tTc	1	1	AY.74	0.000116
ORF3a	74	S74F	tCc	tTc	1	1	AY.78	0.001541
ORF3a	74	S74S	tcC	tcT	1	1	AY.78	0.001541
ORF3a	74	S74S	tcC	tcT	1	1	AY.80	0.001129
ORF3a	74	S74F	tCc	tTc	1	1	AY.86	0.00083
ORF3a	74	S74T	Tcc	Acc	1	1	AY.87	0.000833
ORF3a	74	S74F	tCc	tTc	1	1	AY.9.1	0.000084
ORF3a	74	S74S	tcC	tcT	1	1	AY.90	0.000684
ORF3a	74	S74S	tcC	tcT	1	1	AY.91.1	0.004065
ORF3a	74	S74S	tcC	tcT	1	1	AY.92	0.000287
ORF3a	74	S74F	tCc	tTc	1	1	AY.93	0.000273
ORF3a	74	S74F	tCc	tTc	1	1	AY.94	0.000443
ORF3a	74	S74S	tcC	tcT	1	1	AY.96	0.002075
ORF3a	74	S74P	Tcc	Ccc	1	1	AY.98.1	0.000048
ORF3a	74	S74S	tcC	tcT	1	1	AY.99.1	0.001553
ORF3a	74	S74S	tcC	tcT	1	1	AZ.2	0.000821
ORF3a	74	S74P	Tcc	Ccc	1	1	B	0.000128
ORF3a	74	S74A	Tcc	Gcc	1	1	B.1	0.000009
ORF3a	74	S74N	TCc	AAc	1	1	B.1	0.000009
ORF3a	74	S74T	Tcc	Acc	1	1	B.1.1	0.000018
ORF3a	74	S74N	TCc	AAc	1	1	B.1.1	0.000018
ORF3a	74	S74Y	tCc	tAc	1	1	B.1.1	0.000018
ORF3a	74	S74S	tcC	tcG	1	1	B.1.1.1	0.000327
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.10	0.001115
ORF3a	74	S74Y	tCc	tAc	1	1	B.1.1.122	0.045455
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.1.139	0.022727
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.153	0.001095
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.174	0.003378
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.190	0.05
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.198	0.001468
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.207	0.001182
ORF3a	74	S74T	Tcc	Acc	1	1	B.1.1.214	0.000055
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.1.214	0.000055
ORF3a	74	S74Y	tCc	tAc	1	1	B.1.1.216	0.00089
ORF3a	74	S74S	tcC	tcA	1	1	B.1.1.220	0.001859
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.234	0.012048
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.239	0.032258
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.25	0.000569
ORF3a	74	S74A	Tcc	Gcc	1	1	B.1.1.269	0.001353
ORF3a	74	S74C	tCc	tGc	1	1	B.1.1.28	0.000311
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.280	0.003086
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.282	0.011628
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.1.284	0.000107
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.294	0.001266
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.298	0.000862
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.305	0.003861
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.311	0.000358
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.315	0.008475
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.1.316	0.000925
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.318	0.000302
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.318	0.000302
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.320	0.018182
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.326	0.001761
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.335	0.012987
ORF3a	74	S74Y	tCc	tAc	1	1	B.1.1.348	0.000796
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.354	0.004386
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.355	0.015385
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.37	0.000193
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.372	0.000689
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.374	0.002375
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.396	0.045455
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.398	0.003226
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.403	0.025641
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.409	0.002833
ORF3a	74	S74del	TCC	---	1	1	B.1.1.409	0.002833
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.41	0.006329
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.412	0.007634
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.413	0.006897
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.416	0.000905
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.419	0.007407
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.428	0.009434
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.429	0.004608
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.432	0.001266
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.448	0.002033
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.464	0.001473
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.47	0.005348
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.486	0.001577
ORF3a	74	S74C	tCc	tGc	1	1	B.1.1.519	0.00004
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.523	0.001563
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.524	0.020833
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.528	0.004808
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.59	0.006494
ORF3a	74	S74S	tcC	tcT	1	1	B.1.1.70	0.000341
ORF3a	74	S74F	tCc	tTc	1	1	B.1.1.89	0.006061
ORF3a	74	S74S	tcC	tcT	1	1	B.1.131	0.008772
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.134	0.005464
ORF3a	74	S74S	tcC	tcT	1	1	B.1.157	0.002985
ORF3a	74	S74S	tcC	tcA	1	1	B.1.160.14	0.002119
ORF3a	74	S74S	tcC	tcT	1	1	B.1.160.16	0.000929
ORF3a	74	S74F	tCc	tTc	1	1	B.1.160.16	0.000929
ORF3a	74	S74S	tcC	tcT	1	1	B.1.160.20	0.008929
ORF3a	74	S74S	tcC	tcT	1	1	B.1.160.30	0.002976
ORF3a	74	S74S	tcC	tcT	1	1	B.1.160.8	0.001289
ORF3a	74	S74del	TCC	---	1	1	B.1.161	0.017241
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.10	0.000878
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.15	0.000631
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.17	0.000821
ORF3a	74	S74del	TCC	---	1	1	B.1.177.17	0.000821
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.17	0.000821
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.19	0.001431
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.20	0.001517
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.44	0.000519
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.44	0.000519
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.50	0.004695
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.53	0.002392
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.54	0.000606
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.55	0.002331
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.57	0.000281
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.58	0.001332
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.6	0.000977
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.60	0.000218
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.62	0.001192
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.63	0.002703
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.69	0.001484
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.69	0.001484
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.73	0.000566
ORF3a	74	S74S	tcC	tcT	1	1	B.1.177.73	0.000566
ORF3a	74	S74F	tCc	tTc	1	1	B.1.177.87	0.000728
ORF3a	74	S74F	tCc	tTc	1	1	B.1.179	0.003759
ORF3a	74	S74C	tCc	tGc	1	1	B.1.2	0.000009
ORF3a	74	S74A	Tcc	Gcc	1	1	B.1.2	0.000009
ORF3a	74	S74F	tCc	tTc	1	1	B.1.201	0.005682
ORF3a	74	S74S	tcC	tcT	1	1	B.1.206	0.000816
ORF3a	74	S74S	tcC	tcT	1	1	B.1.211	0.025
ORF3a	74	S74S	tcC	tcT	1	1	B.1.214.2	0.0006
ORF3a	74	S74S	tcC	tcT	1	1	B.1.22	0.001318
ORF3a	74	S74N	TCc	AAc	1	1	B.1.221	0.000071
ORF3a	74	S74T	Tcc	Acc	1	1	B.1.221	0.000071
ORF3a	74	S74F	tCc	tTc	1	1	B.1.222	0.001692
ORF3a	74	S74F	tCc	tTc	1	1	B.1.23	0.006061
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.232	0.000537
ORF3a	74	S74S	tcC	tcT	1	1	B.1.237	0.004975
ORF3a	74	S74F	tCc	tTc	1	1	B.1.237	0.004975
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.240	0.000216
ORF3a	74	S74Y	tCc	tAc	1	1	B.1.240	0.000216
ORF3a	74	S74F	tCc	tTc	1	1	B.1.240	0.000216
ORF3a	74	S74F	tCc	tTc	1	1	B.1.250	0.014493
ORF3a	74	S74C	tCc	tGc	1	1	B.1.258.11	0.000396
ORF3a	74	S74S	tcC	tcT	1	1	B.1.258.11	0.000396
ORF3a	74	S74S	tcC	tcT	1	1	B.1.258.9	0.005
ORF3a	74	S74S	tcC	tcT	1	1	B.1.279	0.000514
ORF3a	74	S74S	tcC	tcT	1	1	B.1.305	0.002151
ORF3a	74	S74F	tCc	tTc	1	1	B.1.320	0.001245
ORF3a	74	S74S	tcC	tcT	1	1	B.1.338	0.008621
ORF3a	74	S74P	Tcc	Ccc	1	1	B.1.351	0.00003
ORF3a	74	S74F	tCc	tTc	1	1	B.1.355	0.011111
ORF3a	74	S74S	tcC	tcT	1	1	B.1.36.10	0.004785
ORF3a	74	S74S	tcC	tcT	1	1	B.1.36.23	0.016393
ORF3a	74	S74F	tCc	tTc	1	1	B.1.36.24	0.006173
ORF3a	74	S74F	tCc	tTc	1	1	B.1.36.29	0.000517
ORF3a	74	S74F	tCc	tTc	1	1	B.1.36.39	0.002217
ORF3a	74	S74S	tcC	tcT	1	1	B.1.36.39	0.002217
ORF3a	74	S74S	tcC	tcT	1	1	B.1.36.7	0.004
ORF3a	74	S74S	tcC	tcT	1	1	B.1.369	0.000285
ORF3a	74	S74F	tCc	tTc	1	1	B.1.377	0.004566
ORF3a	74	S74F	tCc	tTc	1	1	B.1.397	0.004854
ORF3a	74	S74A	Tcc	Gcc	1	1	B.1.399	0.001934
ORF3a	74	S74S	tcC	tcT	1	1	B.1.400	0.000429
ORF3a	74	S74S	tcC	tcT	1	1	B.1.403	0.003268
ORF3a	74	S74del	TCC	---	1	1	B.1.415	0.014286
ORF3a	74	S74F	tCc	tTc	1	1	B.1.422	0.000812
ORF3a	74	S74C	tCc	tGc	1	1	B.1.427	0.00005
ORF3a	74	S74S	tcC	tcT	1	1	B.1.428	0.00102
ORF3a	74	S74F	tCc	tTc	1	1	B.1.433	0.003195
ORF3a	74	S74F	tCc	tTc	1	1	B.1.436	0.001029
ORF3a	74	S74A	Tcc	Gcc	1	1	B.1.438.1	0.000107
ORF3a	74	S74F	tCc	tTc	1	1	B.1.441	0.009615
ORF3a	74	S74S	tcC	tcT	1	1	B.1.456	0.003268
ORF3a	74	S74F	tCc	tTc	1	1	B.1.463	0.008065
ORF3a	74	S74F	tCc	tTc	1	1	B.1.469	0.00361
ORF3a	74	S74S	tcC	tcT	1	1	B.1.497	0.000315
ORF3a	74	S74S	tcC	tcT	1	1	B.1.505	0.004386
ORF3a	74	S74S	tcC	tcT	1	1	B.1.530	0.007143
ORF3a	74	S74S	tcC	tcT	1	1	B.1.544	0.006024
ORF3a	74	S74S	tcC	tcT	1	1	B.1.547	0.02439
ORF3a	74	S74S	tcC	tcT	1	1	B.1.548	0.035714
ORF3a	74	S74S	tcC	tcT	1	1	B.1.550	0.013699
ORF3a	74	S74C	tCc	tGc	1	1	B.1.560	0.00463
ORF3a	74	S74S	tcC	tcT	1	1	B.1.565	0.00081
ORF3a	74	S74F	tCc	tTc	1	1	B.1.576	0.000907
ORF3a	74	S74del	TCC	---	1	1	B.1.585	0.027778
ORF3a	74	S74del1	tCc	t-c	1	1	B.1.596	0.000087
ORF3a	74	S74S	tcC	tcT	1	1	B.1.609	0.000479
ORF3a	74	S74F	tCc	tTc	1	1	B.1.609	0.000479
ORF3a	74	S74F	tCc	tTc	1	1	B.1.612	0.002653
ORF3a	74	S74C	tCc	tGc	1	1	B.1.617.2	0.000004
ORF3a	74	S74T	Tcc	Acc	1	1	B.1.617.2	0.000004
ORF3a	74	S74del	TCC	---	1	1	B.1.617.2	0.000004
ORF3a	74	S74F	tCc	tTc	1	1	B.1.620	0.000946
ORF3a	74	S74F	tCc	tTc	1	1	B.1.621.1	0.000506
ORF3a	74	S74S	tcC	tcA	1	1	B.1.636	0.006711
ORF3a	74	S74del	TCC	---	1	1	B.1.638	0.052632
ORF3a	74	S74F	tCc	tTc	1	1	B.1.78	0.008547
ORF3a	74	S74F	tCc	tTc	1	1	B.23	0.002924
ORF3a	74	S74F	tCc	tTc	1	1	B.29	0.003509
ORF3a	74	S74F	tCc	tTc	1	1	B.35	0.007812
ORF3a	74	S74S	tcC	tcT	1	1	B.38	0.02381
ORF3a	74	S74S	tcC	tcT	1	1	B.39	0.002331
ORF3a	74	S74A	Tcc	Gcc	1	1	B.4	0.002208
ORF3a	74	S74A	Tcc	Gcc	1	1	B.55	0.00295
ORF3a	74	S74S	tcC	tcT	1	1	B.6.8	0.008264
ORF3a	74	S74S	tcC	tcT	1	1	C.14	0.004329
ORF3a	74	S74F	tCc	tTc	1	1	C.16	0.00106
ORF3a	74	S74F	tCc	tTc	1	1	C.26	0.007353
ORF3a	74	S74S	tcC	tcT	1	1	C.30	0.001727
ORF3a	74	S74S	tcC	tcT	1	1	C.36.2	0.034483
ORF3a	74	S74F	tCc	tTc	1	1	C.37.1	0.002618
ORF3a	74	S74F	tCc	tTc	1	1	C.39	0.018868
ORF3a	74	S74P	Tcc	Ccc	1	1	D.2	0.000075
ORF3a	74	S74S	tcC	tcT	1	1	L.3	0.003546
ORF3a	74	S74S	tcC	tcT	1	1	N.1	0.016949
ORF3a	74	S74F	tCc	tTc	1	1	N.4	0.004255
ORF3a	74	S74F	tCc	tTc	1	1	N.5	0.001767
ORF3a	74	S74Y	tCc	tAc	1	1	N.5	0.001767
ORF3a	74	S74F	tCc	tTc	1	1	P.1.1	0.000318
ORF3a	74	S74S	tcC	tcT	1	1	P.1.10	0.000269
ORF3a	74	S74F	tCc	tTc	1	1	P.1.10.1	0.00813
ORF3a	74	S74F	tCc	tTc	1	1	P.1.11	0.010204
ORF3a	74	S74S	tcC	tcT	1	1	P.1.12	0.000484
ORF3a	74	S74P	Tcc	Ccc	1	1	P.1.14	0.000048
ORF3a	74	S74del	TCC	---	1	1	P.1.15	0.000232
ORF3a	74	S74S	tcC	tcT	1	1	P.1.16	0.000374
ORF3a	74	S74F	tCc	tTc	1	1	P.1.17	0.000162
ORF3a	74	S74S	tcC	tcT	1	1	P.1.3	0.034483
ORF3a	74	S74S	tcC	tcT	1	1	P.1.4	0.000977
ORF3a	74	S74P	Tcc	Ccc	1	1	P.1.7	0.000319
ORF3a	74	S74S	tcC	tcT	1	1	P.1.8	0.004785
ORF3a	74	S74F	tCc	tTc	1	1	P.3	0.001595
ORF3a	74	S74F	tCc	tTc	1	1	P.6	0.003145
ORF3a	74	S74S	tcC	tcT	1	1	P.7	0.004367
ORF3a	74	S74S	tcC	tcT	1	1	Q.2	0.000613
ORF3a	74	S74S	tcC	tcT	1	1	Q.3	0.000145
ORF3a	74	S74S	tcC	tcT	1	1	Q.7	0.001111
ORF3a	74	S74S	tcC	tcT	1	1	R.1	0.00009
ORF3a	74	S74F	tCc	tTc	1	1	Z.1	0.00289

CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.